Man pages for maomlab/BayesPharma
Tools for Bayesian Analysis of Non-Linear Pharmacology Models
| basic_stats | Give Basic Statistical Information About the Model Results |
| BayesPharma-package | BayesPharma: Tools for Bayesian Analysis of Non-Linear... |
| bpfit-class | Class 'bpfit' of Models Fit with the BayesPharma Package |
| calculate_log_dose | Add a Log(dose) (in base 10) Column to the Input 'data.frame' |
| cli_init_output_path | Helper function to initialize output for the BayesPharma CLI |
| cli_load_bivariate_formula | Helper function to load sigmoid formula the BayesPharma CLI |
| cli_load_data | Helper function to load data for the BayesPharma CLI |
| cli_load_init | Helper function to load init the BayesPharma CLI |
| cli_load_model_fn | Helper function to load model function the BayesPharma CLI |
| cli_load_prior | Helper function to load prior the BayesPharma CLI |
| cli_load_univariate_formula | Helper function to load a univariate formula for the... |
| cli_parse_options | Helper function to parse command line arguments for the... |
| constant_formula | Formula for a Curve with a Constant Response |
| drc_model | Wrapper for DRC Dose Response Models |
| eval_init | Evaluate an init |
| eval_init_one_param | Helper function for 'eval_init_one_param' |
| expect_gg | Check if an Object is a ggplot2 Plot |
| fit_model_cli | Fit model using command line arguments |
| get_response_units | Get the Response Variable Units from a BayesPharma Model |
| get_response_variable | Get the Response Variable from a BayesPharma Model |
| get_treatment_units | Get the Treatment Variable Units from a BayesPharma Model |
| get_treatment_variable | Get the Treatment Variable from a BayesPharma Model |
| growth_richards | Richards growth function |
| growth_richards_formula | Create a Formula for the Richards Growth Model |
| growth_richards_init | Create Initialization for the Richards Growth Model |
| growth_richards_model | Run Bayesian Richards Growth Model |
| growth_richards_prior | Create a Prior for the Richards Growth Model |
| growth_richards_stanvar | Stan Code for the Richards Growth Function. |
| growth_sigmoid | Sigmoid growth function |
| growth_sigmoid_formula | Create a Formula for the Sigmoid Growth Model |
| growth_sigmoid_init | Create Initialization for the Sigmoid Growth Model |
| growth_sigmoid_model | Run the Bayesian Sigmoid Growth Model |
| growth_sigmoid_prior | Create a Prior for the Sigmoid Growth Model |
| growth_sigmoid_stanvar | Stan Code for the Growth Richards Function. |
| kor_antag | Dose Response Measurements of Four Different Kappa Opioid... |
| michaelis_menten | Generate Data from the Michaelis Menten Enzyme Kinetics |
| michaelis_menten_formula | Define a Formula for the Michaelis Menten Enzyme Kinetics... |
| michaelis_menten_genquant | Stan Code for the Michaelis Menten Model Generated Quantities |
| michaelis_menten_init | Initialize Parameter Values for the Michaelis Menten Enzyme... |
| michaelis_menten_model | Model for the Michaelis Menten Enzyme Kinetics Model |
| michaelis_menten_prior | Create a Prior for the Michaelis Menten Enzyme Kinetics Model |
| michaelis_menten_stanvar | Stan Code for the Michaelis Menten Kinetics Model |
| MuSyC_formula | Create a Formula for the MuSyC Synergy Model |
| MuSyC_genquant | Stan Code for the MuSyC Generated Quantities |
| MuSyC_hi_to_si | Convert Exponent to Slope Parameterization for Drug i in... |
| MuSyC_init | Create Initial Parameter Values for the MuSyC Model |
| MuSyC_model | Fit a MuSyC Synergy Model |
| MuSyC_prior | Create a Prior for the MuSyC Synergy Model |
| MuSyC_robust | Generate MuSyC Ed Scores Using a Robust Functional Form |
| MuSyC_si_to_hi | Convert From Slope to Exponent Parameterization for Drug i in... |
| MuSyC_stanvar | Stan Code for the MuSyC Function. |
| plot_density_distribution | Plot Density Distribution of Model Parameters |
| plot_drc | Create Plot of a DRC Model |
| plot_posterior_density | Plot Posterior Density Distributions of modeled parameters |
| plot_posterior_draws | Plot of Posterior Model Fit Draws |
| plot_pp_check | Perform Posterior Predictive Check |
| plot_prior_posterior_densities | Plot Prior and Posterior Marginal Distributions |
| plot_sigmoid_functional_form | Plot the Sigmoid Functional Form with Labeled Parameters |
| plot_synergy_checkerboard | Plot Synergy Checkerboard |
| Pnear | Compute the Pnear Quality Metric for a RMSD Funnel |
| prepare_init | Helper Function to Prepare an Init for a brms Model |
| prepare_prior | Helper Function to Prepare a Prior for a 'brms' Model |
| rstan_default_init | Helper Function to Create the Default 'rstan' scalar init |
| sigmoid | Sigmoid Function |
| sigmoid_agonist_formula | Create an Agonist Sigmoid Formula for the Sigmoid Model |
| sigmoid_agonist_init | Initialize Parameter Values for an Agonist Sigmoid Model |
| sigmoid_agonist_prior | Create a Prior an Agonist Sigmoid Model |
| sigmoid_antagonist_formula | Create a Formula for the Sigmoid Antagonist Model |
| sigmoid_antagonist_init | Initialize Parameter Values for an Antagonist Sigmoid Model |
| sigmoid_antagonist_prior | Create a Prior an Antagonist Sigmoid Model |
| sigmoid_hill_to_slope | Convert Hill to Slope Parameters a the Sigmoid Functional... |
| sigmoid_model | Fit a Bayesian Sigmoid Model |
| sigmoid_slope_to_hill | Convert Slope to Hill Parameters a the Sigmoid Functional... |
| sigmoid_stanvar | Stan Code for the Sigmoid Model. |
| tQ_formula | Define a Formula for the Total QSSA (tQ) Enzyme Kinetics... |
| tQ_genquant | Stan Code for the tQ Model Generated Quantities |
| tQ_init | Initialize Parameter Values for the tQ Enzyme Kinetic Model |
| tQ_model | Model for the tQ Enzyme Kinetics Model |
| tQ_model_generate | Generate Data from the Total QSSA (tQ) Model for Enzyme... |
| tQ_prior | Create a Prior for the tQ Enzyme Kinetics Model |
| tQ_stanvar | Stan Code for the tQ Enzyme Kinetics Model |
